The main object in this package is the function
load_manifest that loads the manifest (it may take a few
moments):
manifest <- load_manifest()
head(manifest)
#> Name IlmnID RsID Chr MapInfo
#> 1: 200003 200003-0_B_R_1852966091 rs2271862 9 137011907
#> 2: 200050 200050-0_T_R_1853021092 rs2276637 2 219224963
#> 3: 200070 200070-0_B_F_1853043006 rs2856586,rs386419939 16 16172741
#> 4: 200078 200078-0_T_R_1853021093 rs6498618 16 16192757
#> 5: 200087 200087-0_B_F_1852966095 rs11075299 16 16152307
#> 6: 200091 200091-0_T_F_1853021094 rs4369696 16 16187297
#> AddressA_ID AddressB_ID GenomeBuild SNP IlmnStrand SourceStrand
#> 1: 11602827 NA 38 [T/C] BOT TOP
#> 2: 98776159 19692285 38 [C/G] TOP BOT
#> 3: 51650151 7692323 38 [G/C] BOT BOT
#> 4: 68743162 61783172 38 [C/G] TOP BOT
#> 5: 85762343 NA 38 [T/G] BOT BOT
#> 6: 46698991 NA 38 [A/C] TOP TOP
#> TopGenomicSeqSBE TopGenomicSeqSBE_Left TopGenomicSeqSBE_Right BeadSetID
#> 1: G[A/G]T G T 550
#> 2: A[C/G]T A T 532
#> 3: A[C/G]A A A 530
#> 4: G[C/G]G G G 532
#> 5: C[A/C]C C C 532
#> 6: A[A/C]A A A 532
#> Exp_Clusters RefStrand ProbeType SNPType Exclude MappingComment
#> 1: 3 - II UNAMB FALSE
#> 2: 3 - I AMB FALSE
#> 3: 3 + I AMB FALSE
#> 4: 3 - I AMB FALSE
#> 5: 3 + II UNAMB FALSE
#> 6: 3 + II UNAMB FALSE
table(manifest$Chr)
#>
#> 0 1 10 11 12 13 14 15 16 17 18
#> 9724 337463 206158 203604 208001 151846 141138 132379 140726 125882 124818
#> 19 2 20 21 22 3 4 5 6 7 8
#> 90157 345770 103270 57704 59231 305271 268483 256743 302064 229524 218694
#> 9 MT X XY Y
#> 187071 209 113512 5253 2413
table(manifest$ProbeType)
#>
#> I II
#> 144275 4182833